References

=Books= =Papers=
 * [|evolution book 2007]
 * [|Gillespie]
 * [|wakeley]

genetics

 * [|Richard Hudson review]
 * [|Kimura on diffusion theory]
 * [|Barton and Keightley on quantitative trait variation]
 * [|HKY model]
 * [|tavare 1986]
 * [|original ML paper (felsenstein)]
 * [|Coalescent with Selection, Neuhauser & Krone, Genetics 1997]

data/statistical genetics

 * mentioned in dick's 18 sept talk
 * [|stephens and li]
 * [|wall genetics 2006]
 * mcvean
 * [|mcvean science 2005]
 * [|mcvean science 2004]
 * [|mcvean plos 2005]
 * [|mcvean 2002]
 * [|mcvean genetics]
 * xing
 * [|xing 2006]: "Bayesian multi-population haplotype inference via a hierarchical dirichlet process mixture"
 * [|xing 2007]:"Bayesian Haplotype Inference via the Dirichlet Process"
 * [|xing 2006]:"A Hidden Markov Dirichlet Process Model for Genetic Recombination in Open Ancestral Space"
 * mentioned in the "ewens distributions" talk sep 22
 * [|aldous's paper coining the term CRP] 1983, 198 pages, "following jim pitman
 * [|Higgs (1995) -] Bob's lecture this morning reminded me of this old paper of mine. It mentions stick-breaking, and also cutting a tree into subtrees and looking at the sizes of the pieces. It relates frequency distributions from population genetics to problems in physics (spin glasses, dynamical systems etc) [|(Manuscript pdf).]

Migration-Selection Models

 * [[file:Lou_Nagalaki_2002.pdf]]
 * [[file:Lou_Nagalaki_2006.pdf]]
 * [[file:Lou_Nagylaki_2004.pdf]]

others

 * [|Belief Propagation Review]
 * [|another paper from yedidia 2002]
 * belief propagation (warning: not from a variational perspective, as presented)
 * [|Physics of Algorithms or Belief Propagation and Beyond] (lectures of M. Chertkov)

Lactase persistence
[|Tishkoff_Nat Genet_2007.pdf]

=URLs= =Cultural Background= (which one may not know if one were raised a theoretical physicist (speaking personally))
 * [|wikipedia on coalescent theory]
 * [|substitution model]
 * [|Kimura's wikipage]
 * [|crow's]
 * [|haldane's]
 * [|wrights's]
 * [|fisher's]
 * [|dob's]